Non-Coding RNA Search

Ss1.1-rfhi4004b_e1.5

Sequence:


               
               ACAGTGGGCAAGAGGACCCCCCCCACACACACACATACCACATCCCAGCGGAACACACCA
TTTCCCCTCCCCTCAGCAGTGCACTCAGTACAGCGAGACTGACCCCTGACCCTTCCCCAG
CACCCCCCACCTTGGACAGGAAGGAAGTAATGCACCTTCTCTTGCTGATTATTTATTTGT
TTGGAGAAACAGAAATGATGTAAAAGTGTATCTAGAAATATCTCTATATATTTTTAACTG
ACTCTTTGGAATCCCCTGGGGTGGGGTGGGGGGTGGATTTAGGCTTTCATGAAGGGGAGG
AGACAAGGAGCCTGGGAACGCCTCATCTCCCCTCTTGCCACCTCTCTCCACCCCCTAAGG
AGTGGGTCGGAGGAATGGGATTTGTAAGGGGGGAGGGGGGTTGGAATGTTCTATGGAGAA
TCTGGATTCTCTCTGTCTTCCCCATTCAAGTCCCAGAGGGAGGGGAAGGGGAAGGAGGGG
GGGTGGACAGGCCATGGAGGTGCCCCACCCCCAAACCCGACAATCACCCACACTCCTGGG
GCTCCTCCTGGGTCCTGGGCAGGGCGAGTCCAAGTGTGTGGCTGTTGATTTGTTTTCAAT
ATTTCTTTTCGTGCTGTATGGTGATGCTTTCTTAGTATTCTACACAATAAGGAAAGACAA
AGTCCTCGAGATTCTTATGAGTTTTGTTTGAAAACTCTTTCACTATATTTGTTGTAAAGA
GGTTTACTATTAAAAGAAAAAAGAATACACGTTTCT

Sequence:

Distiller database | Help | Less info

Blue-coloured subsequences are predicted RNA structures by RNAz


               
               ACAGTGGGCAAGAGGACCCCCCCCACACACACACATACCACATCCCAGCGGAACACACCA
TTTCCCCTCCCCTCAGCAGTGCACTCAGTACAGCGAGACTGACCCCTGACCCTTCCCCAG
CACCCCCCACCTTGGACAGGAAGGAAGTAATGCACCTTCTCTTGCTGATTATTTATTTGT
TTGGAGAAACAGAAATGATGTAAAAGTGTATCTAGAAATATCTCTATATATTTTTAACTG
ACTCTTTGGAATCCCCTGGGGTGGGGTGGGGGGTGGATTTAGGCTTTCATGAAGGGGAGG
AGACAAGGAGCCTGGGAACGCCTCATCTCCCCTCTTGCCACCTCTCTCCACCCCCTAAGG
AGTGGGTCGGAGGAATGGGATTTGTAAGGGGGGAGGGGGGTTGGAATGTTCTATGGAGAA
TCTGGATTCTCTCTGTCTTCCCCATTCAAGTCCCAGAGGGAGGGGAAGGGGAAGGAGGGG
GGGTGGACAGGCCATGGAGGTGCCCCACCCCCAAACCCGACAATCACCCACACTCCTGGG
GCTCCTCCTGGGTCCTGGGCAGGGCGAGTCCAAGTGTGTGGCTGTTGATTTGTTTTCAAT
ATTTCTTTTCGTGCTGTATGGTGATGCTTTCTTAGTATTCTACACAATAAGGAAAGACAA
AGTCCTCGAGATTCTTATGAGTTTTGTTTGAAAACTCTTTCACTATATTTGTTGTAAAGA
GGTTTACTATTAAAAGAAAAAAGAATACACGTTTCT

Predicted RNA structure(s): 1 entry(ies)

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Predicted RNA structure(s): 1 entry(ies)

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               162-707, + strand, RNAz p=0.999867

Predicted RNA structure(s): 1 entry(ies)

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PigEST conread start position and end position of the predicted RNA structure by RNAz,
PigEST conread reading direction of predicted structure,
ncRNA classificator p of RNAz


               
               162-707, + strand, RNAz p=0.999867

Predicted microRNA(s): 2 entry(ies)

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Predicted microRNA(s): 2 entry(ies)

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               264-491, + strand, RNAmicro p=0.999995
               

               
               263-398, - strand, RNAmicro p=0.989082

Predicted microRNA(s): 2 entry(ies)

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PigEST conread start position and end position of the predicted microRNA,
PigEST conread reading direction of prediction,
miRNA classificator p of RNAmicro


               
               264-491, + strand, RNAmicro p=0.999995
               

               
               263-398, - strand, RNAmicro p=0.989082

Similar Transcript(s): 6 entry(ies)

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Similar Transcript(s): 6 entry(ies)

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               484-455, DB819551 full-length enriched swine cDNA library, adult thymus Sus 
(dbj|DB819551.1|), blast E-value=1e-20, identity=100% 
               

               
               486-444, 4086686 BARC 9BOV Bos taurus cDNA clone 9BOV3_E15 3', mRNA sequence 
(gb|CK970822.1|), blast E-value=0.00000000004, identity=97.67% 
               

               
               486-444, 4087070 BARC 9BOV Bos taurus cDNA clone 9BOV3_E15 5', mRNA sequence 
(gb|CK971191.1|), blast E-value=0.00000000004, identity=97.67% 
               

               
               486-444, BovGen_18602 normal cattle brain Bos taurus cDNA clone 
(gb|CO890277.1|), blast E-value=0.00000000004, identity=97.67% 
               

               
               486-444, 798110 MARC 6BOV Bos taurus cDNA 3', mRNA sequence (gb|CX738706.1|), 
blast E-value=0.00000000004, identity=97.67% 
               

               
               486-444, Hw_loin_49_050810_A10 Bos taurus CF-24-HW loin cDNA library Bos 
(gb|DV793282.1|), blast E-value=0.00000000004, identity=97.67%

Similar Transcript(s): 6 entry(ies)

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PigEST conread start position and end position of sequence similarity to another annotated EST (NCBI dbEST),
transcript identifier and annotation,
blast E-value,
PigEST conread identity to the similar transcript


               
               484-455, DB819551 full-length enriched swine cDNA library, adult thymus Sus 
(dbj|DB819551.1|), blast E-value=1e-20, identity=100% 
               

               
               486-444, 4086686 BARC 9BOV Bos taurus cDNA clone 9BOV3_E15 3', mRNA sequence 
(gb|CK970822.1|), blast E-value=0.00000000004, identity=97.67% 
               

               
               486-444, 4087070 BARC 9BOV Bos taurus cDNA clone 9BOV3_E15 5', mRNA sequence 
(gb|CK971191.1|), blast E-value=0.00000000004, identity=97.67% 
               

               
               486-444, BovGen_18602 normal cattle brain Bos taurus cDNA clone 
(gb|CO890277.1|), blast E-value=0.00000000004, identity=97.67% 
               

               
               486-444, 798110 MARC 6BOV Bos taurus cDNA 3', mRNA sequence (gb|CX738706.1|), 
blast E-value=0.00000000004, identity=97.67% 
               

               
               486-444, Hw_loin_49_050810_A10 Bos taurus CF-24-HW loin cDNA library Bos 
(gb|DV793282.1|), blast E-value=0.00000000004, identity=97.67%

Homologous human UTR: 1 entry(ies)

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Homologous human UTR: 1 entry(ies)

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               5' of NM_005920, +

Homologous human UTR: 1 entry(ies)

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Human gene identifier and UTR site,
human gene reading direction


               
               5' of NM_005920, +

Aligned organism(s): 3 entry(ies)

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Aligned organism(s): 3 entry(ies)

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               3-756, gnl|bosTau2|chr3 (10796032-10795278)
               

               
               3-756, gnl|Hg17|chr1 (153247338-153246596)
               

               
               3-756, gnl|Mm7|chr3 (88285244-88285883)

Aligned organism(s): 3 entry(ies)

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PigEST conread start position and end position of the aligned locus,
aligned organism with chromosome (chromosome position)
closely related Artiodactyla cow is linked to the PigEST - Genome Map


               
               3-756, gnl|bosTau2|chr3 (10796032-10795278)
               

               
               3-756, gnl|Hg17|chr1 (153247338-153246596)
               

               
               3-756, gnl|Mm7|chr3 (88285244-88285883)

Expressed library(ies): 3 entry(ies)

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Expressed library(ies): 3 entry(ies)

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               ebs (0.236602)
               

               
               fhi (0.169578)
               

               
               jca (0.11396)

Expressed library(ies): 3 entry(ies)

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Short name of the library (expression score),
see https://rth.dk/resources/pigest/download/pigest_kvl_1.0.1/cDNA_names.html for library description


               
               ebs (0.236602)
               

               
               fhi (0.169578)
               

               
               jca (0.11396)

	264-491, + strand, RNAmicro p=0.999995
	263-398, - strand, RNAmicro p=0.989082

	484-455, DB819551 full-length enriched swine cDNA library, adult thymus Sus (dbj\|DB819551.1\|), blast E-value=1e-20, identity=100%
	486-444, 4086686 BARC 9BOV Bos taurus cDNA clone 9BOV3_E15 3', mRNA sequence (gb\|CK970822.1\|), blast E-value=0.00000000004, identity=97.67%
	486-444, 4087070 BARC 9BOV Bos taurus cDNA clone 9BOV3_E15 5', mRNA sequence (gb\|CK971191.1\|), blast E-value=0.00000000004, identity=97.67%
	486-444, BovGen_18602 normal cattle brain Bos taurus cDNA clone (gb\|CO890277.1\|), blast E-value=0.00000000004, identity=97.67%
	486-444, 798110 MARC 6BOV Bos taurus cDNA 3', mRNA sequence (gb\|CX738706.1\|), blast E-value=0.00000000004, identity=97.67%
	486-444, Hw_loin_49_050810_A10 Bos taurus CF-24-HW loin cDNA library Bos (gb\|DV793282.1\|), blast E-value=0.00000000004, identity=97.67%

	3-756, gnl\|bosTau2\|chr3 (10796032-10795278)
	3-756, gnl\|Hg17\|chr1 (153247338-153246596)
	3-756, gnl\|Mm7\|chr3 (88285244-88285883)